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Bioinformatics Vol. 19 no. 2 2003
Pages 169-172
© 2003 Oxford University Press

Discovery Note

Computational and experimental analysis reveals a novel Src family kinase in the C. elegans genome

Akhilesh Pandey 1,*, Suraj Peri 1, Colin Thacker 2, Chery A. Whipple 3, John J. Collins 4 and Matthias Mann 1

1 Center for Experimental Bioinformatics, University of Southern Denmark, Odense M, DK-5230, Denmark
2 Biotechnology Laboratory, University of British Columbia, Vancouver, B.C. V6T 1Z4, Canada
3 The Genetics Program
4 Department of Biochemistry and Molecular Biology, University of New Hampshire, Durham, NH 03824, USA

Received on May 8, 2002 ; revised on August 26, 2002 ; accepted on August 28, 2002

Motivation: The complete genomes of a number of organisms have already been sequenced. However, the vast majority of annotated genes are derived by gene prediction methods. It is important to not only validate the predicted coding regions but also to identify genes that may have been missed by these programs.

Methods: We searched the entire C.elegans genomic sequence database maintained by the Sanger Center using human c-Src sequence in a TBLASN search. We have confirmed one of the predicted regions by isolation of a cDNA and carried out a phylogenetic analysis of Src kinase family members in the worm, fly and several vertebrate species.

Results: Our analysis identified a novel tyrosine kinase in the C.elegans genome that contains functional features typical of the Src family kinases that we have designated as Src-1. The open reading frame contains a conserved N-terminal myristoylation site and a tyrosine residue within the C-terminus that is crucial for regulating the activity of Src kinases. Our phylogenetic analysis of Src family members from C.elegans, Drosophila and other higher organisms revealed a relationship among Src kinases from C. elegans and Drosophila.

Contact: pandey{at}cebi.sdu.dk

* To whom correspondence should be addressed.


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